Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101724
Name   oriT_pRHBSTW-00904_2 in_silico
Organism   Klebsiella pneumoniae strain RHBSTW-00904
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABXPA010000002 (202401..202449 [+], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pRHBSTW-00904_2
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1462 GenBank   WP_182140847
Name   traI_HV321_RS27010_pRHBSTW-00904_2 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190448.46 Da        Isoelectric Point: 6.3659

>WP_182140847.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGMFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRHNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGASGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQKSVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QTQIRSGQLLNAPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTQAQEKAIQ
KALSEGETLPAGQPASLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILE
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(635-714)

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(577-629)

AAA domain (AAA_30)

(971-1157)


  Protein structure



No available structure.




T4CP

ID   1141 GenBank   WP_228725823
Name   traD_HV321_RS27015_pRHBSTW-00904_2 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 85812.86 Da        Isoelectric Point: 5.1787

>WP_228725823.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREGRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPEPGPADTDSHASEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNKDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 174195..203007

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV321_RS27015 (HV321_27015) 174195..176507 - 2313 WP_228725823 type IV conjugative transfer system coupling protein TraD virb4
HV321_RS27020 (HV321_27020) 176636..177325 - 690 WP_182140849 hypothetical protein -
HV321_RS27025 (HV321_27025) 177518..178247 - 730 Protein_179 conjugal transfer complement resistance protein TraT -
HV321_RS27035 (HV321_27035) 178656..179189 - 534 WP_004197891 hypothetical protein -
HV321_RS27040 (HV321_27040) 179200..182043 - 2844 WP_182140853 conjugal transfer mating-pair stabilization protein TraG traG
HV321_RS27045 (HV321_27045) 182043..183422 - 1380 WP_074187349 conjugal transfer pilus assembly protein TraH traH
HV321_RS27050 (HV321_27050) 183400..183843 - 444 WP_025712708 F-type conjugal transfer protein TrbF -
HV321_RS27055 (HV321_27055) 183889..184446 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV321_RS27060 (HV321_27060) 184418..184657 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HV321_RS27065 (HV321_27065) 184668..185420 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
HV321_RS27070 (HV321_27070) 185441..185767 - 327 WP_004144402 hypothetical protein -
HV321_RS27075 (HV321_27075) 185780..186028 - 249 WP_004152675 hypothetical protein -
HV321_RS27080 (HV321_27080) 186006..186260 - 255 WP_020804203 conjugal transfer protein TrbE -
HV321_RS27085 (HV321_27085) 186292..188247 - 1956 WP_025712707 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV321_RS27090 (HV321_27090) 188306..188944 - 639 WP_022644933 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV321_RS27095 (HV321_27095) 188957..189916 - 960 WP_202560610 conjugal transfer pilus assembly protein TraU traU
HV321_RS27100 (HV321_27100) 189960..190586 - 627 WP_025712705 type-F conjugative transfer system protein TraW traW
HV321_RS27105 (HV321_27105) 190586..190975 - 390 WP_013214025 type-F conjugative transfer system protein TrbI -
HV321_RS27110 (HV321_27110) 190975..193614 - 2640 WP_025712704 type IV secretion system protein TraC virb4
HV321_RS27115 (HV321_27115) 193686..194084 - 399 WP_161283539 hypothetical protein -
HV321_RS27120 (HV321_27120) 194092..194391 - 300 WP_020805013 hypothetical protein -
HV321_RS27125 (HV321_27125) 194434..194838 - 405 WP_004197817 hypothetical protein -
HV321_RS27130 (HV321_27130) 194905..195216 - 312 WP_025712701 hypothetical protein -
HV321_RS27135 (HV321_27135) 195217..195435 - 219 WP_004195468 hypothetical protein -
HV321_RS30170 195459..195707 - 249 WP_223175793 hypothetical protein -
HV321_RS30175 195778..196176 - 399 WP_020277946 hypothetical protein -
HV321_RS27145 (HV321_27145) 196331..196915 - 585 WP_020277945 type IV conjugative transfer system lipoprotein TraV traV
HV321_RS27150 (HV321_27150) 196989..198413 - 1425 WP_065953840 F-type conjugal transfer pilus assembly protein TraB traB
HV321_RS27155 (HV321_27155) 198413..199153 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
HV321_RS27160 (HV321_27160) 199140..199706 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HV321_RS27165 (HV321_27165) 199726..200031 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
HV321_RS27170 (HV321_27170) 200045..200413 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HV321_RS27175 (HV321_27175) 200481..200681 - 201 WP_046664192 TraY domain-containing protein -
HV321_RS27180 (HV321_27180) 200767..201468 - 702 WP_025712700 hypothetical protein -
HV321_RS27185 (HV321_27185) 201698..202090 - 393 WP_004194114 conjugal transfer relaxosome DNA-binding protein TraM -
HV321_RS27190 (HV321_27190) 202522..203007 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
HV321_RS27195 (HV321_27195) 203040..203369 - 330 WP_011977736 DUF5983 family protein -
HV321_RS27200 (HV321_27200) 203396..204223 - 828 WP_023307552 DUF932 domain-containing protein -
HV321_RS27205 (HV321_27205) 205146..206434 - 1289 Protein_215 ISL3-like element ISPpu12 family transposase -
HV321_RS27210 (HV321_27210) 206456..206968 - 513 WP_004863699 signal peptidase II -
HV321_RS27215 (HV321_27215) 206972..207868 - 897 WP_004574643 cation transporter -

Host bacterium

ID   2168 GenBank   NZ_JABXPA010000002
Plasmid name   pRHBSTW-00904_2 Incompatibility group   IncFIB
Plasmid size   264400 bp Coordinate of oriT [Strand]   202401..202449 [+]
Host baterium   Klebsiella pneumoniae strain RHBSTW-00904

Cargo genes

Drug resistance gene   -
Virulence gene   mrkA, mrkB, mrkC, mrkD, mrkF, mrkJ
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, ncrA, ncrB, ncrC, ncrY
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9